Open MS/MS spectral library search to identify unanticipated post-translational modifications and increase spectral identification rate

Artificial Decoy Spectral Libraries for False Discovery Rate Estimation in Spectral Library Searching in Proteomics

(2009) Henry Lam et al.   JOURNAL OF PROTEOME RESEARCH

Targeted tandem affinity purification of PSD-95 recovers core postsynaptic complexes and schizophrenia susceptibility proteins

(2009) Esperanza Fernández et al.   Molecular Systems Biology

A HUPO test sample study reveals common problems in mass spectrometry–based proteomics

(2009) Alexander W Bell et al.   NATURE METHODS

PTMap—A sequence alignment software for unrestricted, accurate, and full-spectrum identification of post-translational modification sites

(2009) Yue Chen et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Spectral clustering in peptidomics studies helps to unravel modification profile of biologically active peptides and enhances peptide identification rate

(2009) Gerben Menschaert et al.   PROTEOMICS

A simple workflow to increase MS2 identification rate by subsequent spectral library search

(2009) Erik Ahrné et al.   PROTEOMICS

Mass spectrometric identification of formaldehyde-induced peptide modifications under in vivo protein cross-linking conditions

(2008) Judy Toews et al.   ANALYTICA CHIMICA ACTA

A Spectral Clustering Approach to MS/MS Identification of Post-Translational Modifications

(2008) Jayson A. Falkner et al.   JOURNAL OF PROTEOME RESEARCH

A Simulated MS/MS Library for Spectrum-to-spectrum Searching in Large Scale Identification of Proteins

(2008) Chia-Yu Yen et al.   MOLECULAR & CELLULAR PROTEOMICS

Building consensus spectral libraries for peptide identification in proteomics

(2008) Henry Lam et al.   NATURE METHODS

Precision proteomics: The case for high resolution and high mass accuracy

(2008) M. Mann et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Standard Protein Mix Database: A Diverse Data Set To Assist in the Production of Improved Peptide and Protein Identification Software Tools

(2007) John Klimek et al.   JOURNAL OF PROTEOME RESEARCH